Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118743
Name   oriT_IR5392|unnamed4 in_silico
Organism   Klebsiella oxytoca strain IR5392
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP064112 (49978..50083 [-], 106 nt)
oriT length   106 nt
IRs (inverted repeats)      30..35, 41..46  (CCGCCG..CGGCGG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 106 nt

>oriT_IR5392|unnamed4
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11896 GenBank   WP_004187323
Name   traI_ISU85_RS30015_IR5392|unnamed4 insolico UniProt ID   A0A3U8KUL3
Length   659 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 659 a.a.        Molecular weight: 75179.89 Da        Isoelectric Point: 9.9948

>WP_004187323.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSESDDKFNPK

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(86-334)


  Protein structure


Source ID Structure
AlphaFold DB A0A3U8KUL3


T4CP

ID   13924 GenBank   WP_004206885
Name   t4cp2_ISU85_RS29900_IR5392|unnamed4 insolico UniProt ID   _
Length   695 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 695 a.a.        Molecular weight: 79538.91 Da        Isoelectric Point: 4.8317

>WP_004206885.1 MULTISPECIES: conjugal transfer protein TrbC [Enterobacterales]
MQQESVDSKKVLRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 19908..47182

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ISU85_RS29865 (ISU85_29865) 16005..16916 - 912 WP_015586033 LysR family transcriptional regulator -
ISU85_RS29870 (ISU85_29870) 17219..18427 + 1209 WP_001206290 IS4-like element IS10A family transposase -
ISU85_RS29875 (ISU85_29875) 18442..18876 - 435 Protein_25 CPBP family intramembrane glutamate endopeptidase -
ISU85_RS29880 (ISU85_29880) 18956..19339 + 384 WP_019725042 DUF1496 domain-containing protein -
ISU85_RS29885 (ISU85_29885) 19564..19839 + 276 WP_004206888 lytic transglycosylase domain-containing protein -
ISU85_RS29890 (ISU85_29890) 19908..21146 + 1239 WP_225373168 conjugal transfer protein TrbA trbA
ISU85_RS29895 (ISU85_29895) 21157..22107 + 951 WP_004206886 DsbC family protein trbB
ISU85_RS29900 (ISU85_29900) 22120..24207 + 2088 WP_004206885 conjugal transfer protein TrbC -
ISU85_RS30630 24258..24353 - 96 WP_004206884 DinQ-like type I toxin DqlB -
ISU85_RS29905 (ISU85_29905) 25576..26631 - 1056 WP_015060006 plasmid replication initiator RepA -
ISU85_RS29910 (ISU85_29910) 26927..27157 - 231 WP_011091085 IncL/M type plasmid replication protein RepC -
ISU85_RS29915 (ISU85_29915) 27238..27891 - 654 WP_015060005 hypothetical protein -
ISU85_RS29920 (ISU85_29920) 27893..30088 - 2196 WP_015062834 DotA/TraY family protein traY
ISU85_RS29925 (ISU85_29925) 30081..30677 - 597 WP_015060003 hypothetical protein -
ISU85_RS29930 (ISU85_29930) 30674..31882 - 1209 WP_011091082 conjugal transfer protein TraW traW
ISU85_RS29935 (ISU85_29935) 31879..34929 - 3051 WP_004187482 hypothetical protein traU
ISU85_RS29940 (ISU85_29940) 34926..35420 - 495 WP_004187480 hypothetical protein -
ISU85_RS29945 (ISU85_29945) 35466..35855 - 390 WP_004187479 DUF6750 family protein traR
ISU85_RS29950 (ISU85_29950) 35872..36402 - 531 WP_004187478 conjugal transfer protein TraQ traQ
ISU85_RS29955 (ISU85_29955) 36426..37130 - 705 WP_015060002 conjugal transfer protein TraP traP
ISU85_RS29960 (ISU85_29960) 37142..38491 - 1350 WP_004187474 conjugal transfer protein TraO traO
ISU85_RS29965 (ISU85_29965) 38503..39654 - 1152 WP_004187471 DotH/IcmK family type IV secretion protein traN
ISU85_RS29970 (ISU85_29970) 39663..40376 - 714 WP_004187467 DotI/IcmL family type IV secretion protein traM
ISU85_RS29975 (ISU85_29975) 40444..40854 + 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
ISU85_RS29980 (ISU85_29980) 40883..41038 + 156 WP_172693602 Hha/YmoA family nucleoid-associated regulatory protein -
ISU85_RS29985 (ISU85_29985) 41039..41551 - 513 WP_011091071 hypothetical protein traL
ISU85_RS30475 41517..44954 - 3438 WP_015586048 LPD7 domain-containing protein -
ISU85_RS29995 (ISU85_29995) 44979..45239 - 261 WP_004187310 IcmT/TraK family protein traK
ISU85_RS30000 (ISU85_30000) 45229..46392 - 1164 WP_004187313 plasmid transfer ATPase TraJ virB11
ISU85_RS30005 (ISU85_30005) 46403..47182 - 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
ISU85_RS30010 (ISU85_30010) 47179..47679 - 501 WP_004187320 DotD/TraH family lipoprotein -
ISU85_RS30015 (ISU85_30015) 47693..49672 - 1980 WP_004187323 TraI/MobA(P) family conjugative relaxase -
ISU85_RS30020 (ISU85_30020) 49659..49976 - 318 WP_011091068 plasmid mobilization protein MobA -
ISU85_RS30025 (ISU85_30025) 50251..50616 + 366 WP_015586046 hypothetical protein -
ISU85_RS30030 (ISU85_30030) 51117..51653 - 537 WP_036970776 hypothetical protein -
ISU85_RS30035 (ISU85_30035) 51786..52097 - 312 WP_004187333 hypothetical protein -

Host bacterium

ID   19175 GenBank   NZ_CP064112
Plasmid name   IR5392|unnamed4 Incompatibility group   IncL/M
Plasmid size   79397 bp Coordinate of oriT [Strand]   49978..50083 [-]
Host baterium   Klebsiella oxytoca strain IR5392

Cargo genes

Drug resistance gene   blaOXA-48, aph(6)-Id, aph(3'')-Ib, aph(3')-VIb, erm(B), blaCTX-M-14b
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -